chbk

Preview of the changes with Atom's default syntax themes: Without naming conventions(current Tree-sitter grammar) | With naming conventions intheme and Tree-sitter grammar ---|--- Solarized Dark | Solarized Dark One Dark...

Yeah it's a rewrite, difficult to partition into separate commits.

Besides the screenshots above, what would you suggest?

No I haven't found a straightforward way. Our RNA-Seq pipeline (https://github.com/FAANG/analysis-TAGADA) checks that read lengths are approximately equal before running prepDE.py.

`.md` files are highlighted correctly with [language-gfm](https://atom.io/packages/language-gfm), which is installed by default. Are you using another language package?

You can do so by editing Atom's stylesheet `~/.atom/styles.less`: ```css .syntax--source.syntax--css { .syntax--id { color: red; } .syntax--class { color: orange; } } ```

Can you provide a reproducible example? What do you expect to happen?

If you're using Regex parsers then you can add this to Atom's stylesheet `~/.atom/styles.less`: ``` .syntax--comment.syntax--html .syntax--storage { color: purple; } ```

If you want to tweak the highlighting you can find the relevant scopes with the command palette. Press Ctrl + Shift + P and search for `Editor: Log Cursor Scope`...